Hugo_Symbol Entrez_Gene_Id Center NCBI_Build Chromosome Start_position End_position Strand Variant_Classification Variant_Type Reference_Allele Tumor_Seq_Allele1 Tumor_Seq_Allele2 dbSNP_RS dbSNP_Val_Status Tumor_Sample_Barcode Matched_Norm_Sample_Barcode Match_Norm_Seq_Allele1 Match_Norm_Seq_Allele2 Tumor_Validation_Allele1 Tumor_Validation_Allele2 Match_Norm_Validation_Allele1 Match_Norm_Validation_Allele2 Verification_Status Validation_Status Mutation_Status Sequencing_Phase Sequence_Source Validation_Method Score BAM_File Sequencer Tumor_Sample_UUID Matched_Norm_Sample_UUID COSMIC_Codon COSMIC_Gene Transcript_Id Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target TTotCov TVarCov NTotCov NVarCov dbSNPPopFreq COSMIC_Gene_Freq COSMIC_Site_Freq dbSNP_AF Algorithm UBE2J2 118424 hgsc.bcm.edu hg19 1 1192490 1192490 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . UBE2J2 NM_194315 exon6 c.A344G p.D115G TGGAAATCCGTGA . 48.0 4.0 93.0 0.0 . 25 . . Atlas-SNP PRKCZ 5590 hgsc.bcm.edu hg19 1 2105426 2105426 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PRKCZ NM_002744 exon14 c.A1376G p.D459G ACCCGGACATGAA . 100.0 4.0 198.0 0.0 . 84 . . Atlas-SNP NPHP4 261734 hgsc.bcm.edu hg19 1 5934637 5934637 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NPHP4 NM_015102 exon22 c.A3125G p.H1042R CGCAGGTGGAACA . 85.0 7.0 144.0 0.0 . 119 . . Atlas-SNP CHD5 26038 hgsc.bcm.edu hg19 1 6188597 6188597 + Missense_Mutation SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CHD5 NM_015557 exon24 c.C3692T p.A1231V CTGGCGGCCAAGT . 79.0 4.0 153.0 0.0 . 267 . . Atlas-SNP NOL9 79707 hgsc.bcm.edu hg19 1 6589090 6589090 + Missense_Mutation SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NOL9 NM_024654 exon10 c.C1789T p.L597F GGGCAAGCAGGAT . 95.0 4.0 176.0 0.0 . 49 . . Atlas-SNP ENO1 2023 hgsc.bcm.edu hg19 1 8930511 8930511 + Silent SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ENO1 NM_001428 exon4 c.G240A p.K80K TCCTACCTTGCTA . 54.0 4.0 85.0 0.0 . 38 . . Atlas-SNP HNRNPCL1 343069 hgsc.bcm.edu hg19 1 12908011 12908011 + Silent SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . HNRNPCL1 NM_001013631 exon2 c.G132A p.A44A GCAGCCCGCAATT . 301.0 60.0 495.0 0.0 . 68 . . Atlas-SNP CLCNKB 1188 hgsc.bcm.edu hg19 1 16377074 16377074 + Silent SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CLCNKB NM_000085 exon11 c.C1032T p.A344A CAGCGCCGGCCGC . 74.0 4.0 102.0 0.0 . 50 . . Atlas-SNP UBR4 23352 hgsc.bcm.edu hg19 1 19446726 19446726 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . UBR4 NM_020765 exon69 c.A10258G p.N3420D AAGAATTGGACTC . 62.0 4.0 136.0 0.0 . 415 . . Atlas-SNP UBR4 23352 hgsc.bcm.edu hg19 1 19518865 19518865 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . UBR4 NM_020765 exon11 c.A1211G p.Q404R AAATTCTGATAGT . 64.0 4.0 114.0 0.0 . 415 . . Atlas-SNP RAP1GAP 5909 hgsc.bcm.edu hg19 1 21936087 21936087 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . RAP1GAP NM_001145658 exon15 c.A1244G p.D415G GCGGGGTCCGGGA . 88.0 5.0 145.0 0.0 . 119 . . Atlas-SNP HSPG2 3339 hgsc.bcm.edu hg19 1 22191789 22191789 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . HSPG2 NM_005529 exon35 c.A4384G p.M1462V GGAACATGATCTC . 95.0 4.0 165.0 0.0 . 311 . . Atlas-SNP KDM1A 23028 hgsc.bcm.edu hg19 1 23409728 23409728 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . KDM1A NM_001009999 exon21 c.A2502G p.T834T AGCCACAGTGCAT . 84.0 5.0 199.0 0.0 . 49 . . Atlas-SNP CNKSR1 10256 hgsc.bcm.edu hg19 1 26514760 26514760 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CNKSR1 NM_006314 exon17 c.A1490G p.Y497C CCAAGTACCAGTC . 78.0 42.0 118.0 0.0 . 66 . . Atlas-SNP ARID1A 8289 hgsc.bcm.edu hg19 1 27056354 27056354 + Silent SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ARID1A NM_006015 exon2 c.G1350A p.Q450Q ACAGCAGGTAGAT . 223.0 129.0 315.0 1.0 . 842 . . Atlas-SNP SLC9A1 6548 hgsc.bcm.edu hg19 1 27429041 27429041 + Missense_Mutation SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a SLC9A1,NS,carcinoma,0,1 SLC9A1 NM_003047 exon8 c.G1655A p.R552Q TTAAACCGGTTGA . 18.0 2.0 42.0 0.0 . 68 . . Atlas-SNP PTPRU 10076 hgsc.bcm.edu hg19 1 29641992 29641992 + Silent SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PTPRU NM_005704 exon24 c.C3366T p.S1122S CTGCTCCCGGCGT . 82.0 48.0 161.0 0.0 . 374 . . Atlas-SNP NKAIN1 79570 hgsc.bcm.edu hg19 1 31656794 31656794 + Missense_Mutation SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NKAIN1 NM_024522 exon4 c.G341T p.G114V AGGCAGCCTGGCC . 88.0 4.0 112.0 0.0 . 21 . . Atlas-SNP COL16A1 1307 hgsc.bcm.edu hg19 1 32149600 32149600 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . COL16A1 NM_001856 exon33 c.A2288G p.Q763R CCGGGTTGGCCCT . 105.0 5.0 164.0 0.0 . 137 . . Atlas-SNP SPOCD1 90853 hgsc.bcm.edu hg19 1 32280899 32280899 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SPOCD1 NM_144569 exon2 c.A36G p.T12T GTCTCCTGTGCTG . 59.0 4.0 102.0 0.0 . 109 . . Atlas-SNP KPNA6 23633 hgsc.bcm.edu hg19 1 32631794 32631794 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . KPNA6 NM_012316 exon11 c.T1079C p.I360T GGACTATTTCAAA . 91.0 4.0 142.0 0.0 . 34 . . Atlas-SNP IQCC 55721 hgsc.bcm.edu hg19 1 32673299 32673299 + Silent SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . IQCC NM_001160042 exon5 c.G1257A p.R419R GTCCAGGACACAG . 72.0 4.0 139.0 0.0 . 46 . . Atlas-SNP ZBTB8B 728116 hgsc.bcm.edu hg19 1 32950745 32950745 + Missense_Mutation SNP G G T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ZBTB8B NM_001145720 exon4 c.G1214T p.R405I GCAGGAGAACATT . 113.0 5.0 165.0 0.0 . 28 . . Atlas-SNP AK2 204 hgsc.bcm.edu hg19 1 33478978 33478978 + Missense_Mutation SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . AK2 NM_013411 exon6 c.G524A p.R175Q TCTGATCGACGGA . 109.0 44.0 161.0 0.0 . 27 . . Atlas-SNP CSMD2 114784 hgsc.bcm.edu hg19 1 34035040 34035040 + Missense_Mutation SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CSMD2 NM_052896 exon53 c.G8071A p.V2691M AGCCCACCAGTGT . 77.0 4.0 98.0 0.0 . 946 . . Atlas-SNP STK40 83931 hgsc.bcm.edu hg19 1 36814304 36814304 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . STK40 NM_032017 exon8 c.A736G p.S246G TACCGCTGAGCAC . 92.0 4.0 94.0 0.0 . 53 . . Atlas-SNP EPHA10 284656 hgsc.bcm.edu hg19 1 38186511 38186511 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . EPHA10 NM_001099439 exon12 c.A2152G p.T718A TCAAGGTGCTTCC . 84.0 5.0 94.0 0.0 . 120 . . Atlas-SNP MTF1 4520 hgsc.bcm.edu hg19 1 38281033 38281033 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . MTF1 NM_005955 exon11 c.T2037C p.S679S GGCTGAAGAGAAA . 97.0 4.0 126.0 0.0 . 67 . . Atlas-SNP FHL3 2275 hgsc.bcm.edu hg19 1 38463119 38463119 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . FHL3 NM_004468 exon6 c.A801G p.G267G TTGGTCTCCATCC . 76.0 4.0 86.0 0.0 . 9 . . Atlas-SNP SCMH1 22955 hgsc.bcm.edu hg19 1 41493981 41493981 + Missense_Mutation SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SCMH1 NM_001031694 exon16 c.G1868T p.G623V GCCTTGCCATCGA . 94.0 4.0 145.0 0.0 . 120 . . Atlas-SNP BTBD19 149478 hgsc.bcm.edu hg19 1 45275896 45275896 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . BTBD19 NM_001136537 exon2 c.T98C p.F33S TTTGCTTCGTGGT . 80.0 4.0 65.0 0.0 . 16 . . Atlas-SNP TTC4 7268 hgsc.bcm.edu hg19 1 55194027 55194027 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TTC4 NM_004623 exon6 c.A603G p.E201E AATTGAACAGAGG . 165.0 7.0 72.0 0.0 . 21 . . Atlas-SNP ST6GALNAC5 81849 hgsc.bcm.edu hg19 1 77334294 77334294 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ST6GALNAC5 NM_030965 exon2 c.A128G p.Q43R AGCAGCAGCAGCA . 190.0 8.0 62.0 0.0 . 59 . . Atlas-SNP COL11A1 1301 hgsc.bcm.edu hg19 1 103364262 103364262 + Missense_Mutation SNP T T A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . COL11A1 NM_080629 exon56 c.A4244T p.K1415M CCAGGCTTTCCTG . 421.0 63.0 202.0 0.0 . 972 . . Atlas-SNP NOTCH2 4853 hgsc.bcm.edu hg19 1 120461034 120461034 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a NOTCH2,colon,carcinoma,0,1 NOTCH2 NM_024408 exon32 c.A5924G p.D1975G CCATGGTCATCCA . 181.0 9.0 100.0 0.0 . 348 . . Atlas-SNP NOTCH2 4853 hgsc.bcm.edu hg19 1 120539927 120539927 + Silent SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NOTCH2 NM_001200001 exon4 c.C444T p.C148C AGACAGGCAGGCA . 614.0 406.0 317.0 1.0 . 348 . . Atlas-SNP LIX1L 128077 hgsc.bcm.edu hg19 1 145497479 145497479 + Silent SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . LIX1L NM_153713 exon4 c.G684A p.L228L AATGTTGGAGTTC . 537.0 73.0 205.0 0.0 . 28 . . Atlas-SNP ITGA10 8515 hgsc.bcm.edu hg19 1 145530929 145530929 + Missense_Mutation SNP G G T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a ITGA10,NS,carcinoma,0,1 ITGA10 NM_003637 exon7 c.G661T p.D221Y CTGGGAGATTTCC . 482.0 23.0 175.0 0.0 . 131 . . Atlas-SNP CTSK 1513 hgsc.bcm.edu hg19 1 150778691 150778691 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CTSK NM_000396 exon3 c.A130G p.I44V GAGAGATTTCATC . 341.0 258.0 133.0 1.0 . 27 . . Atlas-SNP LCE1F 353137 hgsc.bcm.edu hg19 1 152748869 152748869 + Missense_Mutation SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . LCE1F NM_178354 exon1 c.C22A p.Q8K AGCCAGCAGCAGT . 841.0 640.0 260.0 0.0 . 42 . . Atlas-SNP ARHGEF11 9826 hgsc.bcm.edu hg19 1 156909536 156909536 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ARHGEF11 NM_198236 exon37 c.T3900C p.G1300G CCCTTCACCCCCA . 164.0 7.0 71.0 0.0 . 168 . . Atlas-SNP KLHDC9 126823 hgsc.bcm.edu hg19 1 161068368 161068368 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . KLHDC9 NM_001007255 exon1 c.T43C p.W15R TCAGGCTGGGCCT . 345.0 17.0 79.0 0.0 . 16 . . Atlas-SNP SLC9C2 284525 hgsc.bcm.edu hg19 1 173526509 173526509 + Silent SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a SLC9A11,NS,carcinoma,0,1 . NM_178527 exon10 c.C1185T p.L395L TTCAGCGAGATTA . 1002.0 105.0 366.0 1.0 . . . . Atlas-SNP PAPPA2 60676 hgsc.bcm.edu hg19 1 176668293 176668293 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PAPPA2 NM_020318 exon8 c.T2804C p.V935A CTGAGGTCCACCT . 196.0 9.0 68.0 0.0 . 665 . . Atlas-SNP HMCN1 83872 hgsc.bcm.edu hg19 1 186064493 186064493 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . HMCN1 NM_031935 exon68 c.A10413G p.R3471R GCTTAGAGATGGC . 168.0 7.0 78.0 0.0 . 797 . . Atlas-SNP CFH 3075 hgsc.bcm.edu hg19 1 196705955 196705955 + Missense_Mutation SNP G G T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CFH NM_000186 exon16 c.G2415T p.M805I TTTAGTGGCACAA . 105.0 6.0 59.0 0.0 . 251 . . Atlas-SNP TMEM206 55248 hgsc.bcm.edu hg19 1 212558758 212558758 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a TMEM206,NS,carcinoma,0,1 TMEM206 NM_001198862 exon5 c.T536C p.L179S GGGTACAAGGCAA . 74.0 3.0 132.0 0.0 . 41 . . Atlas-SNP PROX1 5629 hgsc.bcm.edu hg19 1 214171377 214171377 + Missense_Mutation SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PROX1 NM_001270616 exon2 c.C1499T p.P500L GTGCTCCCTCCGG . 61.0 4.0 86.0 0.0 . 124 . . Atlas-SNP USH2A 7399 hgsc.bcm.edu hg19 1 216373309 216373309 + Silent SNP G G T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . USH2A NM_007123 exon17 c.C3471A p.I1157I AGGAATGATATAA . 116.0 5.0 189.0 0.0 . 1168 . . Atlas-SNP SPATA17 128153 hgsc.bcm.edu hg19 1 217947703 217947703 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SPATA17 NM_138796 exon7 c.A547G p.R183G CCCTTCAGAAAAG . 90.0 4.0 94.0 0.0 . 59 . . Atlas-SNP TGFB2 7042 hgsc.bcm.edu hg19 1 218578636 218578636 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TGFB2 NM_001135599 exon3 c.A556G p.K186E AACCCAAAAGCCA . 61.0 4.0 135.0 0.0 . 102 . . Atlas-SNP ACTA1 58 hgsc.bcm.edu hg19 1 229568488 229568488 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ACTA1 NM_001100 exon3 c.A269G p.H90R AAGGTGTGGTGCC . 100.0 4.0 132.0 0.0 . 65 . . Atlas-SNP ABCB10 23456 hgsc.bcm.edu hg19 1 229666086 229666086 + Missense_Mutation SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ABCB10 NM_012089 exon8 c.C1505T p.P502L CGAGCTGGATAGG . 90.0 5.0 119.0 0.0 . 71 . . Atlas-SNP PGBD5 79605 hgsc.bcm.edu hg19 1 230492867 230492867 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PGBD5 NM_001258311 exon2 c.A532G p.S178G AGATGCTGGTGGA . 69.0 4.0 123.0 0.0 . 73 . . Atlas-SNP C1orf198 84886 hgsc.bcm.edu hg19 1 230979276 230979276 + Nonsense_Mutation SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a C1orf198,NS,carcinoma,0,1 C1orf198 NM_032800 exon3 c.G751T p.E251X GCTGCTCCTGACG . 48.0 2.0 84.0 0.0 . 29 . . Atlas-SNP C1orf198 84886 hgsc.bcm.edu hg19 1 231004122 231004122 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . C1orf198 NM_032800 exon1 c.A137G p.D46G TCCTTGTCCTGCA . 108.0 5.0 110.0 0.0 . 29 . . Atlas-SNP LYST 1130 hgsc.bcm.edu hg19 1 235922305 235922305 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . LYST NM_000081 exon23 c.A6848G p.E2283G TTTGGCTCATAAC . 85.0 5.0 126.0 0.0 . 370 . . Atlas-SNP FMN2 56776 hgsc.bcm.edu hg19 1 240370245 240370245 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . FMN2 NM_020066 exon5 c.T2133C p.L711L AGGGCTTGAGAAT . 73.0 4.0 142.0 0.0 . 451 . . Atlas-SNP ZBTB18 10472 hgsc.bcm.edu hg19 1 244218512 244218512 + Nonsense_Mutation SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . . NM_205768 exon2 c.G1436A p.W479X GCAAGTGGTGCGA . 76.0 4.0 105.0 0.0 . . . . Atlas-SNP TFB2M 64216 hgsc.bcm.edu hg19 1 246727677 246727677 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TFB2M NM_022366 exon2 c.A373G p.S125G TGTCACTTTCGAG . 90.0 4.0 128.0 0.0 . 46 . . Atlas-SNP OR6F1 343169 hgsc.bcm.edu hg19 1 247875175 247875175 + Nonsense_Mutation SNP T T A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . OR6F1 NM_001005286 exon1 c.A883T p.K295X CTTCCTTATTACG . 84.0 4.0 166.0 0.0 . 88 . . Atlas-SNP PXDN 7837 hgsc.bcm.edu hg19 2 1652432 1652432 + Silent SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PXDN NM_012293 exon17 c.G3120A p.G1040G CACCTCCCCCAGG . 80.0 4.0 96.0 0.0 . 255 . . Atlas-SNP ASAP2 8853 hgsc.bcm.edu hg19 2 9541497 9541497 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ASAP2 NM_003887 exon27 c.T2918C p.V973A TCATCGTGGACGG . 148.0 7.0 138.0 0.0 . 91 . . Atlas-SNP E2F6 1876 hgsc.bcm.edu hg19 2 11587894 11587894 + Missense_Mutation SNP T T C rs371114161 TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . E2F6 NM_198256 exon6 c.A658G p.I220V CTGTGATAGAGTC . 141.0 55.0 265.0 0.0 . 17 . . Atlas-SNP NBAS 51594 hgsc.bcm.edu hg19 2 15514800 15514800 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NBAS NM_015909 exon31 c.A3635G p.E1212G AGCTCCTCTTGAA . 119.0 5.0 100.0 0.0 . 246 . . Atlas-SNP NBAS 51594 hgsc.bcm.edu hg19 2 15534402 15534402 + Nonsense_Mutation SNP G G T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NBAS NM_015909 exon28 c.C3206A p.S1069X TCTTCTGAGCTAG . 130.0 6.0 143.0 0.0 . 246 . . Atlas-SNP OTOF 9381 hgsc.bcm.edu hg19 2 26693459 26693459 + Splice_Site SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . OTOF NM_194248 exon33 c.4023+2T>C . GGTCTCACCTCCT . 97.0 4.0 131.0 0.0 . 524 . . Atlas-SNP C2orf16 84226 hgsc.bcm.edu hg19 2 27803857 27803857 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . C2orf16 NM_032266 exon1 c.A4418G p.Q1473R TGGGGCAGCCTCT . 74.0 5.0 78.0 0.0 . 357 . . Atlas-SNP FOSL2 2355 hgsc.bcm.edu hg19 2 28627206 28627206 + Missense_Mutation SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a FOSL2,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1 FOSL2 NM_005253 exon2 c.G335A p.R112H TGGGCCGCAGGAG . 70.0 3.0 67.0 0.0 . 39 . . Atlas-SNP THADA 63892 hgsc.bcm.edu hg19 2 43519292 43519292 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . THADA NM_001083953 exon33 c.A4888G p.T1630A TTGGGGTCAGATG . 104.0 5.0 120.0 0.0 . 131 . . Atlas-SNP FBXO11 80204 hgsc.bcm.edu hg19 2 48037548 48037548 + Missense_Mutation SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . FBXO11 NM_001190274 exon19 c.G2245T p.D749Y AAATATCATTTTC . 85.0 4.0 99.0 0.0 . 127 . . Atlas-SNP PSME4 23198 hgsc.bcm.edu hg19 2 54122147 54122147 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PSME4 NM_014614 exon34 c.A3909G p.T1303T TACCTCTGTCATA . 95.0 4.0 95.0 0.0 . 247 . . Atlas-SNP PUS10 150962 hgsc.bcm.edu hg19 2 61175283 61175283 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PUS10 NM_144709 exon16 c.T1346C p.L449P CGGTGAAGGACGC . 123.0 5.0 152.0 0.0 . 49 . . Atlas-SNP XPO1 7514 hgsc.bcm.edu hg19 2 61706090 61706090 + Silent SNP A A C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . XPO1 NM_003400 exon25 c.T3081G p.G1027G GTCTTCACCTGCA . 189.0 59.0 241.0 0.0 . 108 . . Atlas-SNP ARHGAP25 9938 hgsc.bcm.edu hg19 2 69053300 69053300 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ARHGAP25 NM_001007231 exon11 c.A1915G p.M639V AAATCCATGAAGG . 67.0 4.0 102.0 0.0 . 175 . . Atlas-SNP ADD2 119 hgsc.bcm.edu hg19 2 70919547 70919547 + Silent SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ADD2 NM_001185055 exon6 c.G741A p.P247P TGTGGCCGGTGTG . 92.0 4.0 78.0 0.0 . 261 . . Atlas-SNP LOXL3 84695 hgsc.bcm.edu hg19 2 74763252 74763252 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . LOXL3 NM_032603 exon7 c.A1119G p.E373E GCGAACTTCACTC . 61.0 4.0 73.0 0.0 . 73 . . Atlas-SNP HK2 3099 hgsc.bcm.edu hg19 2 75113635 75113635 + Missense_Mutation SNP G G T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . HK2 NM_000189 exon15 c.G2054T p.C685F ATGCCTGCTACAT . 129.0 50.0 143.0 0.0 . 85 . . Atlas-SNP DNAH6 1768 hgsc.bcm.edu hg19 2 84949784 84949784 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . DNAH6 NM_001370 exon60 c.A9828G p.E3276E GGAAGAAGCAGAG . 97.0 4.0 112.0 0.0 . 194 . . Atlas-SNP CD8A 925 hgsc.bcm.edu hg19 2 87013062 87013062 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CD8A NM_001145873 exon9 c.T689C p.L230P GCCGAAAGGCTGG . 107.0 5.0 105.0 0.0 . 28 . . Atlas-SNP NCAPH 23397 hgsc.bcm.edu hg19 2 97009872 97009872 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NCAPH NM_015341 exon6 c.A625G p.K209E ACAACCAAAAAGG . 97.0 4.0 101.0 0.0 . 67 . . Atlas-SNP TMEM131 23505 hgsc.bcm.edu hg19 2 98410005 98410005 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TMEM131 NM_015348 exon30 c.T3398C p.L1133P ACCAAAAGAAACA . 104.0 7.0 107.0 0.0 . 258 . . Atlas-SNP VWA3B 200403 hgsc.bcm.edu hg19 2 98750292 98750292 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . VWA3B NM_144992 exon7 c.A878G p.H293R GATTCCACGCATT . 78.0 4.0 89.0 0.0 . 138 . . Atlas-SNP AFF3 3899 hgsc.bcm.edu hg19 2 100343586 100343586 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . AFF3 NM_001025108 exon10 c.A1119G p.K373K ATCACCTTTCTCT . 80.0 4.0 83.0 0.0 . 164 . . Atlas-SNP TGFBRAP1 9392 hgsc.bcm.edu hg19 2 105885829 105885829 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TGFBRAP1 NM_004257 exon11 c.T2306C p.F769S ATCAGGAATGGGC . 119.0 5.0 123.0 0.0 . 70 . . Atlas-SNP ST6GAL2 84620 hgsc.bcm.edu hg19 2 107459744 107459744 + Silent SNP G G A rs144265287 alternate_allele TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ST6GAL2 NM_032528 exon2 c.C690T p.T230T GTTGGCGGTCAGG . 51.0 4.0 31.0 0.0 . 159 . G|1.000;C|0.000 Atlas-SNP NPHP1 4867 hgsc.bcm.edu hg19 2 110881571 110881571 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NPHP1 NM_000272 exon20 c.T1999C p.S667P GTGTGGAGTGGAG . 66.0 4.0 105.0 0.0 . 68 . . Atlas-SNP PSD4 23550 hgsc.bcm.edu hg19 2 113958938 113958938 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PSD4 NM_012455 exon17 c.A3117G p.S1039S CATCTCAGAGCGC . 69.0 4.0 70.0 0.0 . 74 . . Atlas-SNP CLASP1 23332 hgsc.bcm.edu hg19 2 122227423 122227423 + Missense_Mutation SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CLASP1 NM_001207051 exon9 c.C826T p.R276C GCCGGCGGGTGGT . 108.0 6.0 96.0 0.0 . 135 . . Atlas-SNP CNTNAP5 129684 hgsc.bcm.edu hg19 2 125204453 125204453 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CNTNAP5 NM_130773 exon6 c.A857G p.D286G CGGTGGACAAGCA . 149.0 6.0 182.0 0.0 . 405 . . Atlas-SNP CYP27C1 339761 hgsc.bcm.edu hg19 2 127958787 127958787 + Missense_Mutation SNP T T G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CYP27C1 NM_001001665 exon3 c.A299C p.Y100S CCTGCATACATGG . 88.0 31.0 94.0 0.0 . 52 . . Atlas-SNP PROC 5624 hgsc.bcm.edu hg19 2 128186428 128186428 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PROC NM_000312 exon9 c.A1292G p.N431S TTCACAACTACGG . 73.0 4.0 63.0 0.0 . 31 . . Atlas-SNP MYO7B 4648 hgsc.bcm.edu hg19 2 128338357 128338357 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . MYO7B NM_001080527 exon10 c.T1040C p.M347T ACGTGATGGAGAC . 83.0 4.0 93.0 0.0 . 359 . . Atlas-SNP GPR148 344561 hgsc.bcm.edu hg19 2 131487061 131487061 + Missense_Mutation SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . GPR148 NM_207364 exon1 c.G337A p.G113S CTGGGTGGCTGGG . 140.0 7.0 166.0 0.0 . 54 . . Atlas-SNP R3HDM1 23518 hgsc.bcm.edu hg19 2 136481779 136481779 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . R3HDM1 NM_015361 exon26 c.A3217G p.I1073V AAACAAATTAACT . 87.0 4.0 124.0 0.0 . 84 . . Atlas-SNP CXCR4 7852 hgsc.bcm.edu hg19 2 136872711 136872711 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CXCR4 NM_001008540 exon1 c.T799C p.S267P TGAAGGAGTCGAT . 80.0 4.0 109.0 0.0 . 51 . . Atlas-SNP FIGN 55137 hgsc.bcm.edu hg19 2 164466794 164466794 + Silent SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . FIGN NM_018086 exon3 c.G1548T p.T516T TAAGGCCGTCAGT . 148.0 55.0 175.0 0.0 . 106 . . Atlas-SNP COBLL1 22837 hgsc.bcm.edu hg19 2 165552127 165552127 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . COBLL1 NM_014900 exon12 c.A1889G p.N630S GGTTGATTCAGTT . 654.0 232.0 668.0 0.0 . 122 . . Atlas-SNP LRP2 4036 hgsc.bcm.edu hg19 2 170031784 170031784 + Missense_Mutation SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . LRP2 NM_004525 exon55 c.G10687A p.G3563S AGTTGCCGTCACT . 200.0 88.0 213.0 0.0 . 751 . . Atlas-SNP MYO3B 140469 hgsc.bcm.edu hg19 2 171323061 171323061 + Missense_Mutation SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . MYO3B NM_001083615 exon25 c.C2854T p.H952Y CAGCCCCACTTTG . 75.0 4.0 71.0 0.0 . 320 . . Atlas-SNP GAD1 2571 hgsc.bcm.edu hg19 2 171710458 171710458 + Missense_Mutation SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . GAD1 NM_000817 exon14 c.G1339A p.D447N TCCTACGACACCG . 99.0 5.0 134.0 0.0 . 79 . . Atlas-SNP OLA1 29789 hgsc.bcm.edu hg19 2 174945976 174945976 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . OLA1 NM_013341 exon9 c.T870C p.S290S CAAAGCACTGAAA . 112.0 5.0 97.0 0.0 . 37 . . Atlas-SNP DNAH7 56171 hgsc.bcm.edu hg19 2 196750867 196750867 + Missense_Mutation SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . DNAH7 NM_018897 exon34 c.G5536A p.E1846K TTACCTCAAGCAA . 88.0 4.0 100.0 0.0 . 512 . . Atlas-SNP CCDC150 284992 hgsc.bcm.edu hg19 2 197521794 197521794 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CCDC150 NM_001080539 exon4 c.A510G p.E170E AGAGGAAGAAGAC . 98.0 4.0 148.0 0.0 . 96 . . Atlas-SNP GTF3C3 9330 hgsc.bcm.edu hg19 2 197664292 197664292 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . GTF3C3 NM_001206774 exon1 c.A44G p.K15R GAGATTTTCCCTT . 94.0 4.0 102.0 0.0 . 96 . . Atlas-SNP CASP8 841 hgsc.bcm.edu hg19 2 202134252 202134252 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CASP8 NM_001228 exon4 c.A325G p.S109G CGCATGAGCTGGG . 98.0 6.0 98.0 0.0 . 272 . . Atlas-SNP GPR1 2825 hgsc.bcm.edu hg19 2 207041288 207041288 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a GPR1,NS,carcinoma,0,1 GPR1 NM_001098199 exon3 c.T684C p.C228C GATGAGACACAAG . 75.0 3.0 102.0 0.0 . 38 . . Atlas-SNP PIKFYVE 200576 hgsc.bcm.edu hg19 2 209217489 209217489 + Missense_Mutation SNP G G T rs191717036 bycluster;by1000genomes;alternate_allele TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PIKFYVE NM_015040 exon39 c.G5827T p.G1943W TTCTACGGGAGAA . 53.0 15.0 67.0 0.0 . 223 . G|1.000;A|0.000 Atlas-SNP PIKFYVE 200576 hgsc.bcm.edu hg19 2 209217490 209217490 + Missense_Mutation SNP G G C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PIKFYVE NM_015040 exon39 c.G5828C p.G1943A TCTACGGGAGAAA . 54.0 15.0 67.0 0.0 . 223 . . Atlas-SNP MAP2 4133 hgsc.bcm.edu hg19 2 210558811 210558811 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . MAP2 NM_002374 exon7 c.T1917C p.T639T CAGCACTCTCGCA . 94.0 4.0 114.0 0.0 . 372 . . Atlas-SNP MAP2 4133 hgsc.bcm.edu hg19 2 210570348 210570348 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a MAP2_ENST00000199940,caecum,carcinoma,0,3 MAP2 NM_002374 exon11 c.A4629G p.R1543R CCCAAGACCTTCC . 91.0 5.0 105.0 0.0 . 372 . . Atlas-SNP CPS1 1373 hgsc.bcm.edu hg19 2 211523405 211523405 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CPS1 NM_001122633 exon32 c.A3767G p.D1256G GAAATGATGTCTT . 91.0 4.0 121.0 0.0 . 485 . . Atlas-SNP PECR 55825 hgsc.bcm.edu hg19 2 216904018 216904018 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PECR NM_018441 exon8 c.A892G p.K298E TCTCCTTAAAGGT . 100.0 4.0 89.0 0.0 . 22 . . Atlas-SNP RESP18 389075 hgsc.bcm.edu hg19 2 220194423 220194423 + Missense_Mutation SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . RESP18 NM_001007089 exon4 c.G401T p.R134I TGCAGTCTGCTGG . 145.0 44.0 150.0 0.0 . 13 . . Atlas-SNP SLC4A3 6508 hgsc.bcm.edu hg19 2 220506390 220506390 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SLC4A3 NM_201574 exon23 c.T3720C p.A1240A AGATGCTGAACCA . 115.0 5.0 129.0 0.0 . 144 . . Atlas-SNP WDFY1 57590 hgsc.bcm.edu hg19 2 224746759 224746759 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . WDFY1 NM_020830 exon10 c.T964C p.C322R TCCCGCAGACAGC . 72.0 4.0 58.0 0.0 . 46 . . Atlas-SNP GPR55 9290 hgsc.bcm.edu hg19 2 231775064 231775064 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . GPR55 NM_005683 exon2 c.T614C p.I205T ATGTGGATGCTCC . 92.0 5.0 96.0 0.0 . 46 . . Atlas-SNP NMUR1 10316 hgsc.bcm.edu hg19 2 232392897 232392897 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NMUR1 NM_006056 exon2 c.T835C p.S279P ATCTGGACCTGGC . 74.0 5.0 86.0 0.0 . 46 . . Atlas-SNP C2orf57 165100 hgsc.bcm.edu hg19 2 232458839 232458839 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . C2orf57 NM_152614 exon1 c.A1177G p.N393D GACCCCAACTATG . 100.0 4.0 84.0 0.0 . 35 . . Atlas-SNP ECEL1 9427 hgsc.bcm.edu hg19 2 233344956 233344956 + Silent SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ECEL1 NM_004826 exon18 c.G2235T p.L745L ACTGCCCAGCACC . 102.0 49.0 143.0 0.0 . 73 . . Atlas-SNP NEU2 4759 hgsc.bcm.edu hg19 2 233898881 233898881 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NEU2 NM_005383 exon2 c.A257G p.N86S CCATGAACCCATG . 107.0 5.0 119.0 0.0 . 42 . . Atlas-SNP HJURP 55355 hgsc.bcm.edu hg19 2 234756078 234756078 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . HJURP NM_018410 exon5 c.T367C p.S123P GGTCTGACGTGGC . 134.0 6.0 164.0 0.0 . 72 . . Atlas-SNP BHLHE40 8553 hgsc.bcm.edu hg19 3 5025019 5025019 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . BHLHE40 NM_003670 exon5 c.T881C p.L294P TGCAGCTTTCGGA . 83.0 5.0 95.0 0.0 . 35 . . Atlas-SNP SETD5 55209 hgsc.bcm.edu hg19 3 9517690 9517690 + Missense_Mutation SNP C C G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SETD5 NM_001080517 exon23 c.C4244G p.P1415R ACTACCCACACCG . 92.0 4.0 123.0 0.0 . 210 . . Atlas-SNP IL17RE 132014 hgsc.bcm.edu hg19 3 9944675 9944675 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . IL17RE NM_153483 exon2 c.T179C p.L60P TCGACCTCTCTGA . 160.0 7.0 136.0 0.0 . 62 . . Atlas-SNP C3orf20 84077 hgsc.bcm.edu hg19 3 14724660 14724660 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . C3orf20 NM_032137 exon3 c.A440G p.E147G TGACGGAGCTCCT . 118.0 5.0 109.0 0.0 . 109 . . Atlas-SNP FGD5 152273 hgsc.bcm.edu hg19 3 14862587 14862587 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . FGD5 NM_152536 exon1 c.A2009G p.H670R AATTGCATGTGGA . 123.0 5.0 148.0 0.0 . 248 . . Atlas-SNP CNOT10 25904 hgsc.bcm.edu hg19 3 32811404 32811404 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CNOT10 NM_001256742 exon18 c.A2210G p.E737G CTAAAGAGGTGCC . 82.0 4.0 93.0 0.0 . 57 . . Atlas-SNP TRANK1 9881 hgsc.bcm.edu hg19 3 36874860 36874860 + Missense_Mutation SNP G G C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TRANK1 NM_014831 exon21 c.C6082G p.Q2028E CACACTGGCTGGC . 99.0 4.0 87.0 0.0 . 398 . . Atlas-SNP MLH1 4292 hgsc.bcm.edu hg19 3 37053518 37053518 + Missense_Mutation SNP C C G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . MLH1 NM_000249 exon8 c.C605G p.A202G CAGTAGCTGATGT . 178.0 56.0 209.0 0.0 . 226 . . Atlas-SNP PLCD1 5333 hgsc.bcm.edu hg19 3 38049787 38049787 + Silent SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PLCD1 NM_001130964 exon13 c.G2037T p.V679V GATCTCCACTGTC . 79.0 4.0 133.0 0.0 . 87 . . Atlas-SNP SCN5A 6331 hgsc.bcm.edu hg19 3 38640487 38640487 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SCN5A NM_001160160 exon13 c.T1945C p.C649R CTACACACGGAGC . 84.0 4.0 78.0 0.0 . 634 . . Atlas-SNP SCN10A 6336 hgsc.bcm.edu hg19 3 38812863 38812863 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SCN10A NM_006514 exon4 c.T506C p.L169S TTTATCAAGGCTT . 90.0 5.0 103.0 0.0 . 359 . . Atlas-SNP USP19 10869 hgsc.bcm.edu hg19 3 49149789 49149789 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . USP19 NM_001199161 exon19 c.A2693G p.Q898R TTCCGCTGGCAGG . 119.0 5.0 109.0 0.0 . 158 . . Atlas-SNP LAMB2 3913 hgsc.bcm.edu hg19 3 49169091 49169091 + Silent SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . LAMB2 NM_002292 exon5 c.C525T p.Y175Y ATATCGGTACACA . 92.0 5.0 68.0 0.0 . 156 . . Atlas-SNP IP6K1 9807 hgsc.bcm.edu hg19 3 49775655 49775655 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . IP6K1 NM_153273 exon3 c.A424G p.T142A CAGAGGTCTCAAG . 120.0 5.0 118.0 0.0 . 41 . . Atlas-SNP RASSF1 11186 hgsc.bcm.edu hg19 3 50368106 50368106 + Missense_Mutation SNP C C G rs142957899 alternate_allele TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . RASSF1 NM_170714 exon6 c.G941C p.R314P TCCTCCCGCTGCA . 60.0 12.0 79.0 0.0 . 46 . C|1.000;T|0.000 Atlas-SNP DNAH1 25981 hgsc.bcm.edu hg19 3 52429610 52429610 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . DNAH1 NM_015512 exon70 c.A11175G p.K3725K GGGCAAATGGGTC . 93.0 4.0 126.0 0.0 . 534 . . Atlas-SNP CACNA1D 776 hgsc.bcm.edu hg19 3 53839136 53839136 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CACNA1D NM_000720 exon46 c.A5772G p.R1924R ACGGAGATCTCCA . 29.0 4.0 41.0 0.0 . 324 . . Atlas-SNP PRICKLE2 166336 hgsc.bcm.edu hg19 3 64138962 64138962 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PRICKLE2 NM_198859 exon6 c.T683C p.V228A CCCAGCACTGTCT . 98.0 4.0 73.0 0.0 . 88 . . Atlas-SNP VGLL3 389136 hgsc.bcm.edu hg19 3 87027732 87027732 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . VGLL3 NM_016206 exon2 c.T347C p.L116P GGATGGAGGGTGA . 117.0 6.0 68.0 0.0 . 62 . . Atlas-SNP IFT57 55081 hgsc.bcm.edu hg19 3 107940994 107940994 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . IFT57 NM_018010 exon1 c.A176G p.E59G AGGAACTCCTCCT . 95.0 5.0 114.0 0.0 . 44 . . Atlas-SNP RETNLB 84666 hgsc.bcm.edu hg19 3 108475432 108475432 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . RETNLB NM_032579 exon2 c.A131G p.Y44C GGACTGTACTCTG . 81.0 4.0 113.0 0.0 . 38 . . Atlas-SNP DPPA2 151871 hgsc.bcm.edu hg19 3 109028179 109028179 + Splice_Site SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . DPPA2 NM_138815 exon5 c.182-2A>G . ATGACCTAAGACA . 124.0 5.0 210.0 0.0 . 52 . . Atlas-SNP WDR5B 54554 hgsc.bcm.edu hg19 3 122133628 122133628 + Missense_Mutation SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . WDR5B NM_019069 exon1 c.G748A p.G250S TATGACCAGTGTA . 114.0 5.0 169.0 0.0 . 36 . . Atlas-SNP PLXNA1 5361 hgsc.bcm.edu hg19 3 126739124 126739124 + Silent SNP G G T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PLXNA1 NM_032242 exon20 c.G3975T p.R1325R CTACCGGACATAT . 87.0 4.0 106.0 0.0 . 185 . . Atlas-SNP COL6A6 131873 hgsc.bcm.edu hg19 3 130285737 130285737 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . COL6A6 NM_001102608 exon4 c.A1474G p.K492E ATCAATAAATACT . 123.0 5.0 148.0 0.0 . 497 . . Atlas-SNP PIK3R4 30849 hgsc.bcm.edu hg19 3 130435261 130435261 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a PIK3R4,NS,carcinoma,0,1 PIK3R4 NM_014602 exon9 c.T2310C p.L770L CTTCAGAAGCTGT . 113.0 6.0 134.0 0.0 . 145 . . Atlas-SNP RAB6B 51560 hgsc.bcm.edu hg19 3 133560224 133560224 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . RAB6B NM_016577 exon4 c.A194G p.Q65R CAGAGCTGCAGTC . 84.0 4.0 83.0 0.0 . 36 . . Atlas-SNP PPP2R3A 5523 hgsc.bcm.edu hg19 3 135721457 135721457 + Missense_Mutation SNP T T C rs148236440 alternate_allele TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PPP2R3A NM_002718 exon2 c.T1117C p.S373P AACAACTCCACAA . 119.0 5.0 135.0 0.0 . 114 . T|1.000;G|0.000 Atlas-SNP DBR1 51163 hgsc.bcm.edu hg19 3 137880850 137880850 + Missense_Mutation SNP T T A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . DBR1 NM_016216 exon8 c.A1516T p.T506S CCTTGGTTAAGTC . 540.0 194.0 602.0 0.0 . 45 . . Atlas-SNP PLOD2 5352 hgsc.bcm.edu hg19 3 145795696 145795696 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PLOD2 NM_182943 exon14 c.A1516G p.K506E AGTCTTTTTCCCT . 57.0 4.0 41.0 0.0 . 81 . . Atlas-SNP MED12L 116931 hgsc.bcm.edu hg19 3 150874118 150874118 + Splice_Site SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a MED12L,NS,carcinoma,0,1 MED12L NM_053002 exon5 c.726+1G>A . TTCCAGGTAACCT . 71.0 3.0 99.0 0.0 . 271 . . Atlas-SNP IGSF10 285313 hgsc.bcm.edu hg19 3 151154684 151154684 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . IGSF10 NM_178822 exon6 c.T7665C p.V2555V CTTGGGAACTCCC . 144.0 6.0 170.0 0.0 . 279 . . Atlas-SNP LEKR1 389170 hgsc.bcm.edu hg19 3 156763334 156763334 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . LEKR1 NM_001004316 exon13 c.T1874C p.L625P CAAGACTGAACTC . 92.0 4.0 103.0 0.0 . 66 . . Atlas-SNP FNDC3B 64778 hgsc.bcm.edu hg19 3 171965470 171965470 + Missense_Mutation SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a FNDC3B,NS,carcinoma,0,1 FNDC3B NM_001135095 exon5 c.C412T p.H138Y AACTCACACACGG . 263.0 101.0 289.0 0.0 . 118 . . Atlas-SNP GHSR 2693 hgsc.bcm.edu hg19 3 172163000 172163000 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . GHSR NM_198407 exon2 c.T1052C p.L351P TCTTTCAGAGTGG . 78.0 4.0 84.0 0.0 . 104 . . Atlas-SNP DCUN1D1 54165 hgsc.bcm.edu hg19 3 182665120 182665120 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . DCUN1D1 NM_020640 exon6 c.A606G p.E202E ATGATGTTCCTAT . 90.0 4.0 107.0 0.0 . 27 . . Atlas-SNP EIF4G1 1981 hgsc.bcm.edu hg19 3 184049876 184049876 + Splice_Site SNP T T A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . EIF4G1 NM_001194946 exon33 c.4639+2T>A . TCCCAGTAAGAGC . 65.0 4.0 88.0 0.0 . 151 . . Atlas-SNP MAP3K13 9175 hgsc.bcm.edu hg19 3 185191353 185191353 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a .,1 MAP3K13 NM_004721 exon11 c.T2234C p.I745T TAGACATACCCTC . 54.0 3.0 60.0 0.0 . 209 . . Atlas-SNP FGFR3 2261 hgsc.bcm.edu hg19 4 1805419 1805419 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . FGFR3 NM_000142 exon8 c.A931G p.T311A TTGTAGACGGCGG . 68.0 5.0 127.0 0.0 . 3320 . . Atlas-SNP LETM1 3954 hgsc.bcm.edu hg19 4 1843301 1843301 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a LETM1,caecum,carcinoma,0,1 LETM1 NM_012318 exon3 c.T367C p.S123P TGAGGGACTTCTC . 52.0 4.0 73.0 0.0 . 48 . . Atlas-SNP POLN 353497 hgsc.bcm.edu hg19 4 2210196 2210196 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . POLN NM_181808 exon3 c.A232G p.S78G TCTGACTTCTTAA . 59.0 4.0 78.0 0.0 . 82 . . Atlas-SNP SH3BP2 6452 hgsc.bcm.edu hg19 4 2824742 2824742 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SH3BP2 NM_001145856 exon3 c.T388C p.F130L GGCGCCTTCTCCC . 95.0 4.0 128.0 0.0 . 43 . . Atlas-SNP LAP3 51056 hgsc.bcm.edu hg19 4 17586728 17586728 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . LAP3 NM_015907 exon6 c.A673G p.S225G CTCAAAAGTGCTA . 99.0 4.0 110.0 0.0 . 50 . . Atlas-SNP FAM184B 27146 hgsc.bcm.edu hg19 4 17641002 17641002 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . FAM184B NM_015688 exon14 c.A2537G p.Q846R GCTTGCTGAGTCT . 85.0 4.0 105.0 0.0 . 38 . . Atlas-SNP TLR6 10333 hgsc.bcm.edu hg19 4 38830367 38830367 + Missense_Mutation SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TLR6 NM_006068 exon2 c.C728T p.S243L AGTTCTGATAAAA . 86.0 4.0 132.0 0.0 . 67 . . Atlas-SNP PHOX2B 8929 hgsc.bcm.edu hg19 4 41750513 41750513 + Missense_Mutation SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PHOX2B NM_003924 exon1 c.G115A p.A39T CACTGGCCTGGCT . 70.0 4.0 66.0 0.0 . 53 . . Atlas-SNP ART3 419 hgsc.bcm.edu hg19 4 77018798 77018798 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ART3 NM_001130017 exon4 c.A783G p.G261G TTCAGGACTAAAA . 97.0 4.0 139.0 0.0 . 34 . . Atlas-SNP AFF1 4299 hgsc.bcm.edu hg19 4 88035706 88035706 + Missense_Mutation SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . AFF1 NM_001166693 exon12 c.C1721A p.S574Y AAAGCTCCAGCAA . 62.0 17.0 76.0 0.0 . 102 . . Atlas-SNP GRID2 2895 hgsc.bcm.edu hg19 4 94006348 94006348 + Silent SNP T T G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . GRID2 NM_001510 exon3 c.T447G p.P149P CCCACCTGTCTAC . 136.0 53.0 193.0 0.0 . 233 . . Atlas-SNP PDHA2 5161 hgsc.bcm.edu hg19 4 96761829 96761829 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PDHA2 NM_005390 exon1 c.T528C p.A176A CATTGCTCTGGCC . 75.0 4.0 72.0 0.0 . 118 . . Atlas-SNP CENPE 1062 hgsc.bcm.edu hg19 4 104053878 104053878 + Missense_Mutation SNP A A T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CENPE NM_001813 exon42 c.T6896A p.V2299E TTATTCACTTGAC . 236.0 92.0 348.0 0.0 . 253 . . Atlas-SNP ANK2 287 hgsc.bcm.edu hg19 4 114274414 114274414 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ANK2 NM_001148 exon38 c.A4640G p.E1547G CAGGAGAGCCTTT . 106.0 5.0 121.0 0.0 . 576 . . Atlas-SNP PDE5A 8654 hgsc.bcm.edu hg19 4 120549709 120549709 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PDE5A NM_001083 exon1 c.T118C p.F40L AGGTAAAGTCCCA . 75.0 5.0 76.0 0.0 . 83 . . Atlas-SNP LARP1B 55132 hgsc.bcm.edu hg19 4 129127685 129127685 + Nonsense_Mutation SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . LARP1B NM_018078 exon18 c.C2412A p.Y804X AGACTACGAATCT . 76.0 4.0 103.0 0.0 . 120 . . Atlas-SNP GAB1 2549 hgsc.bcm.edu hg19 4 144378870 144378870 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . GAB1 NM_207123 exon7 c.T1623C p.G541G CCATGGTTTAGAG . 94.0 5.0 107.0 0.0 . 80 . . Atlas-SNP PRMT10 90826 hgsc.bcm.edu hg19 4 148563937 148563937 + Splice_Site SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PRMT10 NM_138364 exon11 c.2199+1G>A . CACTTACCTGAAA . 78.0 4.0 128.0 0.0 . 68 . . Atlas-SNP NR3C2 4306 hgsc.bcm.edu hg19 4 149073680 149073680 + Missense_Mutation SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NR3C2 NM_000901 exon6 c.G2450T p.R817I TACGATCTCCAGC . 234.0 78.0 308.0 0.0 . 94 . . Atlas-SNP RBM46 166863 hgsc.bcm.edu hg19 4 155719149 155719149 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . RBM46 NM_144979 exon3 c.A338G p.E113G AAGAAGAAGCCCA . 100.0 4.0 159.0 0.0 . 76 . . Atlas-SNP GALNTL6 442117 hgsc.bcm.edu hg19 4 173730521 173730521 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . GALNTL6 NM_001034845 exon6 c.A563G p.K188R ACCTGAAGGATAA . 97.0 4.0 171.0 0.0 . 102 . . Atlas-SNP NEIL3 55247 hgsc.bcm.edu hg19 4 178257425 178257425 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . NEIL3 NM_018248 exon4 c.A577G p.I193V GGGAACATCATCA . 94.0 4.0 174.0 0.0 . 89 . . Atlas-SNP WWC2 80014 hgsc.bcm.edu hg19 4 184169911 184169911 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . WWC2 NM_024949 exon7 c.T777C p.I259I GAACATTGGCAGA . 97.0 5.0 116.0 0.0 . 78 . . Atlas-SNP UFSP2 55325 hgsc.bcm.edu hg19 4 186336995 186336995 + Missense_Mutation SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . UFSP2 NM_018359 exon5 c.G360A p.M120I TTCCAGCATAAGA . 79.0 4.0 126.0 0.0 . 33 . . Atlas-SNP FAT1 2195 hgsc.bcm.edu hg19 4 187541014 187541014 + Silent SNP C C T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . FAT1 NM_005245 exon10 c.G6726A p.L2242L AAAGTCCAGAGGA . 76.0 4.0 168.0 0.0 . 500 . . Atlas-SNP SLC9A3 6550 hgsc.bcm.edu hg19 5 488453 488453 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SLC9A3 NM_004174 exon3 c.T653C p.L218P TTCAGCAGCGACT . 89.0 4.0 84.0 0.0 . 89 . . Atlas-SNP SEMA5A 9037 hgsc.bcm.edu hg19 5 9119234 9119234 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SEMA5A NM_003966 exon15 c.T1801C p.W601R AGGTCCAGGGAGT . 140.0 7.0 122.0 0.0 . 236 . . Atlas-SNP TRIO 7204 hgsc.bcm.edu hg19 5 14474101 14474101 + Splice_Site SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TRIO NM_007118 exon40 c.5980-2A>G . AATTGTAGGGCTA . 92.0 4.0 110.0 0.0 . 305 . . Atlas-SNP TRIO 7204 hgsc.bcm.edu hg19 5 14502746 14502746 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TRIO NM_007118 exon54 c.T8391C p.S2797S CTACAGTGAAGTG . 69.0 5.0 60.0 0.0 . 305 . . Atlas-SNP TRIO 7204 hgsc.bcm.edu hg19 5 14508302 14508302 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TRIO NM_007118 exon57 c.A9065G p.K3022R GCCAGAAGGCCAA . 64.0 4.0 90.0 0.0 . 305 . . Atlas-SNP ZFR 51663 hgsc.bcm.edu hg19 5 32444759 32444759 + Missense_Mutation SNP A A C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ZFR NM_016107 exon1 c.T6G p.I2M TATGGGAATCATG . 326.0 36.0 223.0 0.0 . 98 . . Atlas-SNP RICTOR 253260 hgsc.bcm.edu hg19 5 38978735 38978735 + Nonsense_Mutation SNP A A T novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . RICTOR NM_152756 exon9 c.T771A p.Y257X ATCAGTATAGGGT . 99.0 4.0 92.0 0.0 . 182 . . Atlas-SNP SKIV2L2 23517 hgsc.bcm.edu hg19 5 54674959 54674959 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SKIV2L2 NM_015360 exon18 c.A1988G p.K663R AGGTAAAGAATGA . 36.0 4.0 32.0 0.0 . 104 . . Atlas-SNP RGS7BP 401190 hgsc.bcm.edu hg19 5 63802520 63802520 + Silent SNP C C A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . RGS7BP NM_001029875 exon1 c.C69A p.I23I CCAGATCAGCAAG . 115.0 5.0 84.0 0.0 . 32 . . Atlas-SNP ADAMTS6 11174 hgsc.bcm.edu hg19 5 64558682 64558682 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ADAMTS6 NM_197941 exon13 c.A1728G p.G576G GACGCCTCCCCCG . 88.0 4.0 53.0 0.0 . 174 . . Atlas-SNP CCNB1 891 hgsc.bcm.edu hg19 5 68467214 68467214 + Missense_Mutation SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CCNB1 NM_031966 exon4 c.G481A p.G161R GAAGATGGAGCTG . 286.0 88.0 237.0 0.0 . 36 . . Atlas-SNP VCAN 1462 hgsc.bcm.edu hg19 5 82807955 82807955 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . VCAN NM_004385 exon6 c.T782C p.F261S GTAAATTCACCTT . 65.0 5.0 59.0 0.0 . 498 . . Atlas-SNP MCTP1 79772 hgsc.bcm.edu hg19 5 94224673 94224673 + Missense_Mutation SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . MCTP1 NM_024717 exon12 c.C1844T p.P615L CTCAATGGGCTCT . 108.0 5.0 91.0 0.0 . 110 . . Atlas-SNP FTMT 94033 hgsc.bcm.edu hg19 5 121187671 121187671 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . FTMT NM_177478 exon1 c.T13C p.F5L TCCTGCTTCAGGC . 76.0 4.0 60.0 0.0 . 71 . . Atlas-SNP CTNNA1 1495 hgsc.bcm.edu hg19 5 138260967 138260967 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . CTNNA1 NM_001903 exon13 c.A1770G p.Q590Q TGAGCAAGTAGAA . 97.0 5.0 75.0 0.0 . 114 . . Atlas-SNP DND1 373863 hgsc.bcm.edu hg19 5 140052972 140052972 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . DND1 NM_194249 exon2 c.T26C p.L9P CACCACAGCTGAG . 122.0 6.0 97.0 0.0 . 15 . . Atlas-SNP PCDHB5 26167 hgsc.bcm.edu hg19 5 140515856 140515856 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PCDHB5 NM_015669 exon1 c.T840C p.A280A CTATGCTCTATTC . 99.0 4.0 100.0 0.0 . 184 . . Atlas-SNP PCDHB6 56130 hgsc.bcm.edu hg19 5 140530199 140530199 + Nonsense_Mutation SNP C C T rs144886449 alternate_allele TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PCDHB6 NM_018939 exon1 c.C361T p.R121X TCCTTGCGAGTCA . 93.0 4.0 89.0 0.0 . 161 . C|1.000;A|0.000 Atlas-SNP PCDHGC3 5098 hgsc.bcm.edu hg19 5 140856091 140856091 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . PCDHGC3 NM_032402 exon1 c.T408C p.P136P TTTCCCTACCCAG . 119.0 5.0 120.0 0.0 . 173 . . Atlas-SNP SH3TC2 79628 hgsc.bcm.edu hg19 5 148407517 148407517 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SH3TC2 NM_024577 exon11 c.A1778G p.E593G GCCTTTTCCAACA . 81.0 4.0 81.0 0.0 . 178 . . Atlas-SNP ARHGEF37 389337 hgsc.bcm.edu hg19 5 148980772 148980772 + Silent SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ARHGEF37 NM_001001669 exon3 c.A288G p.E96E CAAGGAAGAGGAA . 100.0 4.0 86.0 0.0 . 45 . . Atlas-SNP TNIP1 10318 hgsc.bcm.edu hg19 5 150436496 150436496 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TNIP1 NM_001252385 exon6 c.A458G p.E153G CCGTCCTCACGGG . 61.0 5.0 38.0 0.0 . 51 . . Atlas-SNP ATP10B 23120 hgsc.bcm.edu hg19 5 160063301 160063301 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . ATP10B NM_025153 exon11 c.A1016G p.N339S GTCCCATTCCAGA . 85.0 4.0 65.0 0.0 . 201 . . Atlas-SNP GABRG2 2566 hgsc.bcm.edu hg19 5 161580269 161580269 + Silent SNP G G A novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . GABRG2 NM_198903 exon11 c.G1443A p.R481R TGGGAGGATACAT . 716.0 200.0 589.0 0.0 . 142 . . Atlas-SNP FAM193B 54540 hgsc.bcm.edu hg19 5 176951436 176951436 + Silent SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . FAM193B NM_001190946 exon6 c.A2046G p.K682K GCCTACTTTGGGA . 99.0 5.0 129.0 0.0 . 28 . . Atlas-SNP TBC1D9B 23061 hgsc.bcm.edu hg19 5 179320450 179320450 + Missense_Mutation SNP A A G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TBC1D9B NM_198868 exon5 c.T595C p.W199R CCACCCACTGCAC . 72.0 4.0 64.0 0.0 . 157 . . Atlas-SNP MGAT1 4245 hgsc.bcm.edu hg19 5 180218962 180218962 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . MGAT1 NM_001114617 exon3 c.A1010G p.Q337R ACAAACTGCTGGT . 89.0 4.0 88.0 0.0 . 48 . . Atlas-SNP SLC22A23 63027 hgsc.bcm.edu hg19 6 3290023 3290023 + Missense_Mutation SNP T T C novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . SLC22A23 NM_015482 exon6 c.A1288G p.N430D CAATGTTCTTCCA . 84.0 4.0 88.0 0.0 . 89 . . Atlas-SNP TMPRSS11B 132724 hgsc.bcm.edu hg19 4 69097023 69097023 + Frame_Shift_Del DEL G G - novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . TMPRSS11B NM_182502 exon7 c.585delA p.A195fs . . 241.0 76.0 187.0 0.0 . 66 . . Atlas-Indel,Pindel WDR33 55339 hgsc.bcm.edu hg19 2 128522284 128522336 + Frame_Shift_Del DEL GTGCAGAAAGTTTCCCAGAAACTGACAGAGCCCATGCATCTCTGCACCCAGAA GTGCAGAAAGTTTCCCAGAAACTGACAGAGCCCATGCATCTCTGCACCCAGAA - novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 GTGCAGAAAGTTTCCCAGAAACTGACAGAGCCCATGCATCTCTGCACCCAGAA GTGCAGAAAGTTTCCCAGAAACTGACAGAGCCCATGCATCTCTGCACCCAGAA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . WDR33 NM_001006622 exon6 c.693_745del p.231_249del . . 155.0 16.0 271.0 0.0 . 136 . . Atlas-Indel,Pindel GABRG2 2566 hgsc.bcm.edu hg19 5 161576259 161576259 + Frame_Shift_Del DEL G G - novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . GABRG2 NM_198903 exon9 c.1187delT p.L396fs . . 915.0 222.0 807.0 0.0 . 142 . . Atlas-Indel,Pindel LEAP2 116842 hgsc.bcm.edu hg19 5 132209684 132209685 + Frame_Shift_Ins INS - - G novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . LEAP2 NM_052971 exon2 c.100_101insG p.R34fs . . 136.0 64.0 137.0 0.0 . 6 . . Atlas-Indel,Pindel UBQLN4 56893 hgsc.bcm.edu hg19 1 156011369 156011371 + In_Frame_Del DEL CGT CGT - novel TCGA-BC-A10W-01A-11D-A12Z-10 TCGA-BC-A10W-11A-11D-A12Z-10 CGT CGT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9681d501-d5be-4b4d-8587-69b0a4f9eb3a 16c0da05-13b9-4c80-947f-2532f2cbf61a . UBQLN4 NM_020131 exon10 c.1559_1561del p.520_521del . . 403.0 45.0 152.0 0.0 . 47 . . Atlas-INDEL